Matteo Comin

Publication Activity (10 Years)

Years Active: 2004-2024
Publications (10 Years): 32

Top Topics

Sequence Classification

Computational Challenges

Top Venues

J. Comput. Biol.

IEEE ACM Trans. Comput. Biol. Bioinform.

Publications

Enrico Rossignolo, Matteo Comin
-Mer Sets with Counters via de Bruijn Graphs. J. Comput. Biol. 31 (6) (2024)
Enrico Rossignolo, Matteo Comin
USTAR2: Fast and Succinct Representation of k-mer Sets Using De Bruijn Graphs. BIOSTEC (1) (2024)
Margherita Cavattoni, Matteo Comin
ClassGraph: Improving Metagenomic Read Classification with Overlap Graphs. J. Comput. Biol. 30 (6) (2023)
Eleonora Mian, Enrico Petrucci, Cinzia Pizzi, Matteo Comin
Efficient Hashing of Multiple Spaced Seeds with Application. BIOINFORMATICS (2023)
Enrico Rossignolo, Matteo Comin
USTAR: Improved Compression of k-mer Sets with Counters Using de Bruijn Graphs. ISBRA (2023)
Mattia Marcolin, Francesco Andreace, Matteo Comin
Efficient k-mer Indexing with Application to Mapping-free SNP Genotyping. BIOINFORMATICS (2022)
Davide Storato, Matteo Comin
K2Mem: Discovering Discriminative K-mers From Sequencing Data for Metagenomic Reads Classification. IEEE ACM Trans. Comput. Biol. Bioinform. 19 (1) (2022)
Diego Santoro, Leonardo Pellegrina, Matteo Comin, Fabio Vandin
-mers by sampling reads, and applications. Bioinform. 38 (13) (2022)
Jens Allmer, Mourad Elloumi, Matteo Comin, Ralf Hofestädt
Special Issue of the 1st International Applied Bioinformatics Conference (iABC'21). J. Integr. Bioinform. 18 (4) (2021)
Francesco Andreace, Cinzia Pizzi, Matteo Comin
MetaProb 2: Metagenomic Reads Binning Based on Assembly Using Minimizers and K-Mers Statistics. J. Comput. Biol. 28 (11) (2021)
Maurilio Monsu, Matteo Comin
Fast alignment of reads to a variation graph with application to SNP detection. J. Integr. Bioinform. 18 (4) (2021)
Matteo Comin, Barbara Di Camillo, Cinzia Pizzi, Fabio Vandin
Comparison of microbiome samples: methods and computational challenges. Briefings Bioinform. 22 (1) (2021)
Enrico Petrucci, Laurent Noé, Cinzia Pizzi, Matteo Comin
Iterative Spaced Seed Hashing: Closing the Gap Between Spaced Seed Hashing and k-mer Hashing. J. Comput. Biol. 27 (2) (2020)
Francesco Andreace, Cinzia Pizzi, Matteo Comin
MetaProb 2: Improving Unsupervised Metagenomic Binning with Efficient Reads Assembly Using Minimizers. ICCABS (2020)
Davide Storato, Matteo Comin
Improving Metagenomic Classification Using Discriminative k-mers from Sequencing Data. ISBRA (2020)
Jia Qian, Matteo Comin
MetaCon: unsupervised clustering of metagenomic contigs with probabilistic k-mers statistics and coverage. BMC Bioinform. (9) (2019)
Enrico Petrucci, Laurent Noé, Cinzia Pizzi, Matteo Comin
Iterative Spaced Seed Hashing: Closing the Gap Between Spaced Seed Hashing and k-mer Hashing. ISBRA (2019)
Yoshihiro Shibuya, Matteo Comin
Indexing k-mers in Linear-space for Quality Value Compression. BIOINFORMATICS (2019)
Yoshihiro Shibuya, Matteo Comin
Better quality score compression through sequence-based quality smoothing. BMC Bioinform. (9) (2019)
Yoshihiro Shibuya, Matteo Comin
Indexing k-mers in linear space for quality value compression. J. Bioinform. Comput. Biol. 17 (5) (2019)
Samuele Girotto, Matteo Comin, Cinzia Pizzi
FSH: fast spaced seed hashing exploiting adjacent hashes. Algorithms Mol. Biol. 13 (1) (2018)
Jia Qian, Matteo Comin, Livio Pianura
Data-Driven Smart Bike-Sharing System by Implementing Machine Learning Algorithms. ES (2018)
Samuele Girotto, Matteo Comin, Cinzia Pizzi
Fast Spaced Seed Hashing. WABI (2017)
Samuele Girotto, Matteo Comin, Cinzia Pizzi
Binning metagenomic reads with probabilistic sequence signatures based on spaced seeds. CIBCB (2017)
Samuele Girotto, Matteo Comin, Cinzia Pizzi
Metagenomic reads binning with spaced seeds. Theor. Comput. Sci. 698 (2017)
Davide Marchiori, Matteo Comin
SKraken: Fast and Sensitive Classification of Short Metagenomic Reads based on Filtering Uninformative k-mers. BIOINFORMATICS (2017)
Jia Qian, Davide Marchiori, Matteo Comin
Fast and Sensitive Classification of Short Metagenomic Reads with SKraken. BIOSTEC (Selected Papers) (2017)
Samuele Girotto, Matteo Comin, Cinzia Pizzi
Higher recall in metagenomic sequence classification exploiting Overlapping Reads. ICCABS (2016)
Matteo Comin, Morris Antonello
On the comparison of regulatory sequences with multiple resolution Entropic Profiles. BMC Bioinform. 17 (2016)
Samuele Girotto, Cinzia Pizzi, Matteo Comin
MetaProb: accurate metagenomic reads binning based on probabilistic sequence signatures. Bioinform. 32 (17) (2016)
Matteo Comin, Morris Antonelli
Fast Alignment-free Comparison for Regulatory Sequences using Multiple Resolution Entropic Profiles. BIOINFORMATICS (2015)
Matteo Comin, Andrea Leoni, Michele Schimd
Clustering of reads with alignment-free measures and quality values. Algorithms Mol. Biol. 10 (2015)
Matteo Comin, Davide Verzotto
Beyond Fixed-Resolution Alignment-Free Measures for Mammalian Enhancers Sequence Comparison. IEEE ACM Trans. Comput. Biol. Bioinform. 11 (4) (2014)
Matteo Comin, Michele Schimd
Assembly-free genome comparison based on next-generation sequencing reads and variable length patterns. BMC Bioinform. 15 (S-9) (2014)
Matteo Comin, Montse Farreras
Parallel Continuous Flow: A Parallel Suffix Tree Construction Tool for Whole Genomes. J. Comput. Biol. 21 (4) (2014)
Matteo Comin, Morris Antonello
Fast Entropic Profiler: An InformationTheoretic Approach for the Discovery ofPatterns in Genomes. IEEE ACM Trans. Comput. Biol. Bioinform. 11 (3) (2014)
Matteo Comin, Andrea Leoni, Michele Schimd
QCluster: Extending Alignment-Free Measures with Quality Values for Reads Clustering. WABI (2014)
Matteo Comin, Davide Verzotto
Filtering Degenerate Patterns with Application to Protein Sequence Analysis. Algorithms 6 (2) (2013)
Matteo Comin, Davide Verzotto
Reducing the Space of Degenerate Patterns in Protein Remote Homology Detection. DEXA Workshops (2013)
Matteo Comin, Morris Antonello
Fast Computation of Entropic Profiles for the Detection of Conservation in Genomes. PRIB (2013)
Matteo Comin, Montse Farreras
Efficient parallel construction of suffix trees for genomes larger than main memory. EuroMPI (2013)
Alberto Apostolico, Matteo Comin, Andreas W. M. Dress, Laxmi Parida
Ultrametric networks: a new tool for phylogenetic analysis. Algorithms Mol. Biol. 8 (2013)
Matteo Comin, Davide Verzotto
Alignment-free phylogeny of whole genomes using underlying subwords. Algorithms Mol. Biol. 7 (2012)
Matteo Comin, Davide Verzotto
Whole-Genome Phylogeny by Virtue of Unic Subwords. DEXA Workshops (2012)
Matteo Comin, Davide Verzotto
The Irredundant Class Method for Remote Homology Detection of Protein Sequences. J. Comput. Biol. 18 (12) (2011)
Matteo Comin, Davide Verzotto
Classification of protein sequences by means of irredundant patterns. BMC Bioinform. 11 (S-1) (2010)
Matteo Comin, Davide Verzotto
Remote Homology Detection of Protein Sequences. Structure Discovery in Biology: Motifs, Networks & Phylogenies (2010)
Alberto Apostolico, Matteo Comin, Laxmi Parida
VARUN: Discovering Extensible Motifs under Saturation Constraints. IEEE ACM Trans. Comput. Biol. Bioinform. 7 (4) (2010)
Matteo Comin, Concettina Guerra, Frank Dellaert
Binding Balls: Fast Detection of Binding Sites Using a Property of Spherical Fourier Transform. J. Comput. Biol. 16 (11) (2009)
Matteo Comin, Concettina Guerra, Giuseppe Zanotti
Mining Overrepresented 3D Patterns of Secondary Structures in proteins. J. Bioinform. Comput. Biol. 6 (6) (2008)
Matteo Comin, Laxmi Parida
Detection of subtle variations as consensus motifs. Theor. Comput. Sci. 395 (2-3) (2008)
Giovanni Ciriello, Matteo Comin, Concettina Guerra
Algorithmic re-structuring and data replication for protein structure comparison on a GRID. Future Gener. Comput. Syst. 23 (3) (2007)
Matteo Comin, Laxmi Parida
Subtle Motif Discovery for Detection of DNA Regulatory Sites. APBC (2007)
Alberto Apostolico, Matteo Comin, Laxmi Parida
Mining, compressing and classifying with extensible motifs. Algorithms Mol. Biol. 1 (2006)
Giovanni Ciriello, Matteo Comin, Concettina Guerra
Application re-structuring and data management on a grid environment: a case study for bioinformatics. IPDPS (2006)
Alberto Apostolico, Matteo Comin, Laxmi Parida
Bridging Lossy and Lossless Compression by Motif Pattern Discovery. GTIT-C (2006)
Alberto Apostolico, Matteo Comin, Laxmi Parida
Off-Line Compression by Extensible Motifs. DCC (2005)
Alberto Apostolico, Matteo Comin, Laxmi Parida
Bridging Lossy and Lossless Compression by Motif Pattern Discovery. Electron. Notes Discret. Math. 21 (2005)
Alberto Apostolico, Matteo Comin, Laxmi Parida
Conservative extraction of over-represented extensible motifs. ISMB (Supplement of Bioinformatics) (2005)
Alberto Apostolico, Matteo Comin, Laxmi Parida
Motifs in Ziv-Lempel-Welch Clef. Data Compression Conference (2004)
Mario Cannataro, Matteo Comin, Carlo Ferrari, Concettina Guerra, Antonella Guzzo, Pierangelo Veltri
Modelling a Protein Structure Comparison Application on the Grid Using PROTEUS. SAG (2004)
Matteo Comin, Carlo Ferrari, Concettina Guerra
Grid Deployment Of Bioinformatics Applications: A Case Study In Protein Similarity Determination. Parallel Process. Lett. 14 (2) (2004)
Matteo Comin, Concettina Guerra, Giuseppe Zanotti
PROuST: A Comparison Method of Three-Dimensional Structures of Proteins Using Indexing Techniques. J. Comput. Biol. 11 (6) (2004)